pseudobulking on an AnnData object
☆34Mar 14, 2025Updated 11 months ago
Alternatives and similar repositories for adpbulk
Users that are interested in adpbulk are comparing it to the libraries listed below
Sorting:
- A flexible and fast sgRNA counter from FASTQ Files☆11Dec 29, 2025Updated 2 months ago
- Kyoto Encylopedia of Genes and Genomes (KEGG) NetworkX Topological parser automates downloading, parsing, and converting from a KEGG Mark…☆11May 8, 2024Updated last year
- Code and example of the D-SPIN framework☆24Jan 12, 2026Updated last month
- Rep-Seq data analysis tutorial☆11Dec 6, 2017Updated 8 years ago
- Gene Set Enrichment Analysis in Python☆11Oct 26, 2018Updated 7 years ago
- Nextflow implementation of scAutoQC pipeline☆11Feb 21, 2026Updated last week
- Build contrasts for models defined with formulaic☆12Updated this week
- Conveniently process a dictionary of anndatas☆22Jan 26, 2026Updated last month
- ☆12Feb 6, 2024Updated 2 years ago
- Matplotlib style for scientific publications☆14Updated this week
- Compendium of tools for the Imaging Platform☆15Feb 22, 2026Updated last week
- The KEGGgraph package to parse KEGG pathways in R into graph objects☆14Apr 14, 2025Updated 10 months ago
- This R package for performing module repertoire analyses and generating fingerprint representations☆18Sep 16, 2021Updated 4 years ago
- represent each cell in UMAP plots as a pie chart☆16Sep 27, 2021Updated 4 years ago
- UNCURL is a tool for single cell RNA-seq data analysis.☆15Jun 27, 2022Updated 3 years ago
- Trans-association between HLA and TCR-CDR3☆19Mar 29, 2023Updated 2 years ago
- Python package to perform enrichment analysis from omics data.☆257Feb 28, 2026Updated last week
- Functional and Learnable Cell dynamicS☆21May 13, 2025Updated 9 months ago
- Reconstruct the lineage topology of a scRNA-seq differentiation dataset.☆19Jun 25, 2020Updated 5 years ago
- Robust Allele Specific Quantification and quality controL☆40Dec 13, 2021Updated 4 years ago
- Metabolomics software for database-assisted deconvolution of MS/MS spectra☆19Jan 24, 2024Updated 2 years ago
- a Graph database and R package for omic data integration☆19Oct 28, 2016Updated 9 years ago
- List of papers on deconvolution of cell types in bulk RNA-seq based on single-cell signatures☆18Aug 28, 2020Updated 5 years ago
- ☆26Apr 1, 2025Updated 11 months ago
- CellWalkR: An R Package for integrating single-cell and bulk data to resolve regulatory elements☆22Oct 8, 2025Updated 4 months ago
- Generate high quality, publication ready visualizations for single cell transcriptomics data.☆218Updated this week
- Read RDS files, in Python☆26Updated this week
- R package for the inference of cell fate bias from single-cell RNA-seq data.☆22Jun 14, 2022Updated 3 years ago
- A standard library for biological research.☆32Sep 2, 2025Updated 6 months ago
- PyWGCNA is a Python package designed to do Weighted Gene Correlation Network analysis (WGCNA)☆291Feb 17, 2025Updated last year
- Collection of tutorials to build RNA-KG v2.0 from scratch and for reproducing experiments such as "context-aware" KG pruning, clustering,…☆29Feb 6, 2026Updated last month
- Convert between AnnData and SingleCellExperiment☆144Updated this week
- analysis of single cell RNA sequencing data and cell type annotation☆19Jan 2, 2020Updated 6 years ago
- MorphoDiff is a diffusion based generative pipeline to predict high-resolution cell morphological responses under different conditions ba…☆33Aug 13, 2025Updated 6 months ago
- R client for the OmniPath web service☆155Feb 27, 2026Updated last week
- ☆19Jun 13, 2019Updated 6 years ago
- Collection of analysis tools for quantitative trait loci☆62Feb 20, 2026Updated 2 weeks ago
- This is the alpha version of the CellOracle package☆422Feb 3, 2026Updated last month
- Bioinformatics pipeline for single-cell 3' UTR isoform quantification☆26Jan 29, 2026Updated last month